Monte Carlo Hamiltonian - From Statistical Physics to Quantum Theory

Monte Carlo techniques have been widely employed in statistical physics as well as in quantum theory in the Lagrangian formulation. However, in some areas of application to quantum theories computational progress has been slow. Here we present a recently developed approach: the Monte Carlo Hamiltonian method, designed to overcome the difficulties of the conventional approach.Comment: StatPhys-Taiwan-1999, 6 pages, LaTeX using elsart.cl

New methodologies to characterize the effectiveness of the gene transfer mediated by DNA-chitosan nanoparticles

In this work three DNA-chitosan nanoparticle formulations (Np), differing in the molecular weight (MW; 150 kDa, 400 kDa, and 600 kDa) of the polysaccharide, were prepared and administered by two different administration routes: the hydrodynamics-based procedure and the intraduodenal injection. After the hydrodynamic injection, DNA-chitosan nanoparticles were predominantly accumulated in the liver, where the transgene was expressed during at least 105 days. No signifi cant infl uence of MW was observed on the levels of luciferase expression. The curves of bioluminescence versus time obtained using the charge-coupled device (CCD) camera were described and divided in three phases: (i) the initial phase, (ii) the sustained release step and (iii) the decline phase (promotor inactivation, immunological and physiological processes). From these curves, which describe the transgene expression profi le, the behavior of the different formulations as gene delivery systems was characterized. Therefore, the following parameters such as Cmax (maximum level of detected bioluminescence), AUC (area under the bioluminescence-time curve) and MET (mean time of the transgene expression) were calculated. This approach offers the possibility of studying and comparing transgene expression kinetics among a wide variety of gene delivery systems. Finally, the intraduodenal administration of naked DNA permitted the gene transfer in a dose dependent manner quantifi able with the CCD camera within 3 days. Nevertheless, the same administration procedure of the three formulations did not improve the levels of transgene expression obtained with naked DNA. This fact could be explained by the rapid physiological turn-over of enterocytes and by the ability of chitosan nanoparticles to control the DNA release

Quantum Step Heights in Hysteresis Loops of Molecular Magnets

We present an analytical theory on the heights of the quantum steps observed in the hysteresis loops of molecular magnets. By considering the dipolar interaction between molecular spins, our theory successfully yields the step heights measured in experiments, and reveals a scaling law for the dependence of the heights on the sweeping rates hidden in the experiment data on Fe$_8$ and Mn$_4$. With this theory, we show how to accurately determine the tunnel splitting of a single molecular spin from the step heights.Comment: 4 pages, 5 figure

Correctly validating results from single molecule data: the case of stretched exponential decay in the catalytic activity of single lipase B molecules

The question of how to validate and interpret correctly the waiting time probability density functions (WT-PDFs) from single molecule data is addressed. It is shown by simulation that when a stretched exponential WT-PDF, with a stretched exponent alfa and a time scale parameter tau, generates the off periods of a two-state trajectory, a reliable recovery of the input WT-PDF from the trajectory is obtained even when the bin size used to define the trajectory, dt, is much larger than the parameter tau. This holds true as long as the first moment of the WT-PDF is much larger than dt. Our results validate the results in an earlier study of the activity of single Lipase B molecules and disprove recent related critique

Impact of eV-mass sterile neutrinos on neutrino-driven supernova outflows

Motivated by recent hints for sterile neutrinos from the reactor anomaly, we study active-sterile conversions in a three-flavor scenario (2 active + 1 sterile families) for three different representative times during the neutrino-cooling evolution of the proto-neutron star born in an electron-capture supernova. In our "early model" (0.5 s post bounce), the nu_e-nu_s MSW effect driven by Delta m^2=2.35 eV^2 is dominated by ordinary matter and leads to a complete nu_e-nu_s swap with little or no trace of collective flavor oscillations. In our "intermediate" (2.9 s p.b.) and "late models" (6.5 s p.b.), neutrinos themselves significantly modify the nu_e-nu_s matter effect, and, in particular in the late model, nu-nu refraction strongly reduces the matter effect, largely suppressing the overall nu_e-nu_s MSW conversion. This phenomenon has not been reported in previous studies of active-sterile supernova neutrino oscillations. We always include the feedback effect on the electron fraction Y_e due to neutrino oscillations. In all examples, Y_e is reduced and therefore the presence of sterile neutrinos can affect the conditions for heavy-element formation in the supernova ejecta, even if probably not enabling the r-process in the investigated outflows of an electron-capture supernova. The impact of neutrino-neutrino refraction is strong but complicated, leaving open the possibility that with a more complete treatment, or for other supernova models, active-sterile neutrino oscillations could generate conditions suitable for the r-process.Comment: 23 pages, including 14 figures and 2 tables (minor changes in the text). Matches published version in JCA

First-Principles Studies of Hydrogenated Si(111)--7×\times7

The relaxed geometries and electronic properties of the hydrogenated phases of the Si(111)-7$\times$7 surface are studied using first-principles molecular dynamics. A monohydride phase, with one H per dangling bond adsorbed on the bare surface is found to be energetically favorable. Another phase where 43 hydrogens saturate the dangling bonds created by the removal of the adatoms from the clean surface is found to be nearly equivalent energetically. Experimental STM and differential reflectance characteristics of the hydrogenated surfaces agree well with the calculated features.Comment: REVTEX manuscript with 3 postscript figures, all included in uu file. Also available at http://www.phy.ohiou.edu/~ulloa/ulloa.htm

Augmenting light coverage for photosynthesis through YFP-enhanced charge separation at the Rhodobacter sphaeroides reaction centre.

Photosynthesis uses a limited range of the solar spectrum, so enhancing spectral coverage could improve the efficiency of light capture. Here, we show that a hybrid reaction centre (RC)/yellow fluorescent protein (YFP) complex accelerates photosynthetic growth in the bacterium Rhodobacter sphaeroides. The structure of the RC/YFP-light-harvesting 1 (LH1) complex shows the position of YFP attachment to the RC-H subunit, on the cytoplasmic side of the RC complex. Fluorescence lifetime microscopy of whole cells and ultrafast transient absorption spectroscopy of purified RC/YFP complexes show that the YFP-RC intermolecular distance and spectral overlap between the emission of YFP and the visible-region (QX) absorption bands of the RC allow energy transfer via a Förster mechanism, with an efficiency of 40±10%. This proof-of-principle study demonstrates the feasibility of increasing spectral coverage for harvesting light using non-native genetically-encoded light-absorbers, thereby augmenting energy transfer and trapping in photosynthesis

Phase separating binary fluids under oscillatory shear

We apply lattice Boltzmann methods to study the segregation of binary fluid mixtures under oscillatory shear flow in two dimensions. The algorithm allows to simulate systems whose dynamics is described by the Navier-Stokes and the convection-diffusion equations. The interplay between several time scales produces a rich and complex phenomenology. We investigate the effects of different oscillation frequencies and viscosities on the morphology of the phase separating domains. We find that at high frequencies the evolution is almost isotropic with growth exponents 2/3 and 1/3 in the inertial (low viscosity) and diffusive (high viscosity) regimes, respectively. When the period of the applied shear flow becomes of the same order of the relaxation time $T_R$ of the shear velocity profile, anisotropic effects are clearly observable. In correspondence with non-linear patterns for the velocity profiles, we find configurations where lamellar order close to the walls coexists with isotropic domains in the middle of the system. For particular values of frequency and viscosity it can also happen that the convective effects induced by the oscillations cause an interruption or a slowing of the segregation process, as found in some experiments. Finally, at very low frequencies, the morphology of domains is characterized by lamellar order everywhere in the system resembling what happens in the case with steady shear.Comment: 1 table and 12 figures in .gif forma

First-principles study of the polar O-terminated ZnO surface in thermodynamic equilibrium with oxygen and hydrogen

Using density-functional theory in combination with a thermodynamic formalism we calculate the relative stability of various structural models of the polar O-terminated (000-1)-O surface of ZnO. Model surfaces with different concentrations of oxygen vacancies and hydrogen adatoms are considered. Assuming that the surfaces are in thermodynamic equilibrium with an O2 and H2 gas phase we determine a phase diagram of the lowest-energy surface structures. For a wide range of temperatures and pressures we find that hydrogen will be adsorbed at the surface, preferentially with a coverage of 1/2 monolayer. At high temperatures and low pressures the hydrogen can be removed and a structure with 1/4 of the surface oxygen atoms missing becomes the most stable one. The clean, defect-free surface can only exist in an oxygen-rich environment with a very low hydrogen partial pressure. However, since we find that the dissociative adsorption of molecular hydrogen and water (if also the Zn-terminated surface is present) is energetically very preferable, it is very unlikely that a clean, defect-free (000-1)-O surface can be observed in experiment.Comment: 10 pages, 4 postscript figures. Uses REVTEX and epsf macro